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Intracranial Electrode Location and Analysis in MNE-Python

Intracranial Electrode Location and Analysis in MNE-Python - Published in JOSS (2022)

https://github.com/mne-tools/mne-python

Science Score: 100.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 4 DOI reference(s) in README and JOSS metadata
  • ✓
    Academic publication links
    Links to: zenodo.org
  • ✓
    Committers with academic emails
    56 of 397 committers (14.1%) from academic institutions
  • ○
    Institutional organization owner
  • ✓
    JOSS paper metadata
    Published in Journal of Open Source Software

Keywords

ecog eeg electrocorticography electroencephalography machine-learning magnetoencephalography meg neuroimaging neuroscience python statistics visualization

Keywords from Contributors

bids ieeg mne brain dipole connectivity time-frequency seeg fieldtrip donders

Scientific Fields

Medicine Life Sciences - 92% confidence
Economics Social Sciences - 85% confidence
Last synced: 4 months ago · JSON representation ·

Repository

MNE: Magnetoencephalography (MEG) and Electroencephalography (EEG) in Python

Basic Info
  • Host: GitHub
  • Owner: mne-tools
  • License: bsd-3-clause
  • Language: Python
  • Default Branch: main
  • Homepage: https://mne.tools
  • Size: 158 MB
Statistics
  • Stars: 3,034
  • Watchers: 84
  • Forks: 1,407
  • Open Issues: 606
  • Releases: 60
Topics
ecog eeg electrocorticography electroencephalography machine-learning magnetoencephalography meg neuroimaging neuroscience python statistics visualization
Created almost 15 years ago · Last pushed 4 months ago
Metadata Files
Readme Contributing Funding License Citation Codeowners Security Codemeta

README.rst 

.. -*- mode: rst -*-

|MNE|

MNE-Python
==========

MNE-Python is an open-source Python package for exploring,
visualizing, and analyzing human neurophysiological data such as MEG, EEG, sEEG,
ECoG, and more. It includes modules for data input/output, preprocessing,
visualization, source estimation, time-frequency analysis, connectivity analysis,
machine learning, statistics, and more.


Documentation
^^^^^^^^^^^^^

`Documentation`_ for MNE-Python encompasses installation instructions, tutorials,
and examples for a wide variety of topics, contributing guidelines, and an API
reference.


Forum
^^^^^^

The `user forum`_ is the best place to ask questions about MNE-Python usage or
the contribution process. The forum also features job opportunities and other
announcements.

If you find a bug or have an idea for a new feature that should be added to
MNE-Python, please use the
`issue tracker `__ of
our GitHub repository.


Installation
^^^^^^^^^^^^

To install the latest stable version of MNE-Python with minimal dependencies
only, use pip_ in a terminal:

.. code-block:: console

    $ pip install --upgrade mne

For more complete instructions, including our standalone installers and more
advanced installation methods, please refer to the `installation guide`_.


Get the development version
^^^^^^^^^^^^^^^^^^^^^^^^^^^

To install the latest development version of MNE-Python using pip_, open a
terminal and type:

.. code-block:: console

    $ pip install --upgrade https://github.com/mne-tools/mne-python/archive/refs/heads/main.zip

To clone the repository with `git `__, open a terminal
and type:

.. code-block:: console

    $ git clone https://github.com/mne-tools/mne-python.git


Dependencies
^^^^^^^^^^^^

The minimum required dependencies to run MNE-Python are:

.. ↓↓↓ BEGIN CORE DEPS LIST. DO NOT EDIT! HANDLED BY PRE-COMMIT HOOK ↓↓↓

- `Python `__ ≥ 3.10
- `NumPy `__ ≥ 1.25
- `SciPy `__ ≥ 1.11
- `Matplotlib `__ ≥ 3.7
- `Pooch `__ ≥ 1.5
- `tqdm `__
- `Jinja2 `__
- `decorator `__
- `lazy-loader `__ ≥ 0.3
- `packaging `__

.. ↑↑↑ END CORE DEPS LIST. DO NOT EDIT! HANDLED BY PRE-COMMIT HOOK ↑↑↑

Contributing
^^^^^^^^^^^^

Please see the `contributing guidelines `__ on our documentation website.


About
^^^^^

+---------+------------+----------------+
| CI      | |Codecov|  | |Bandit|       |
+---------+------------+----------------+
| Package | |PyPI|     | |conda-forge|  |
+---------+------------+----------------+
| Docs    | |Docs|     | |Discourse|    |
+---------+------------+----------------+
| Meta    | |Zenodo|   | |OpenSSF|      |
+---------+------------+----------------+


License
^^^^^^^

MNE-Python is licensed under the BSD-3-Clause license.


.. _Documentation: https://mne.tools/dev/
.. _user forum: https://mne.discourse.group
.. _installation guide: https://mne.tools/dev/install/index.html
.. _pip: https://pip.pypa.io/en/stable/

.. |PyPI| image:: https://img.shields.io/pypi/dm/mne.svg?label=PyPI
   :target: https://pypi.org/project/mne/

.. |conda-forge| image:: https://img.shields.io/conda/dn/conda-forge/mne.svg?label=Conda
   :target: https://anaconda.org/conda-forge/mne

.. |Docs| image:: https://img.shields.io/badge/Docs-online-green?label=Documentation
   :target: https://mne.tools/dev/

.. |Zenodo| image:: https://zenodo.org/badge/DOI/10.5281/zenodo.592483.svg
   :target: https://doi.org/10.5281/zenodo.592483

.. |Discourse| image:: https://img.shields.io/discourse/status?label=Forum&server=https%3A%2F%2Fmne.discourse.group%2F
   :target: https://mne.discourse.group/

.. |Codecov| image:: https://img.shields.io/codecov/c/github/mne-tools/mne-python?label=Coverage
   :target: https://codecov.io/gh/mne-tools/mne-python

.. |Bandit| image:: https://img.shields.io/badge/Security-Bandit-yellow.svg
   :target: https://github.com/PyCQA/bandit

.. |OpenSSF| image:: https://www.bestpractices.dev/projects/7783/badge
   :target: https://www.bestpractices.dev/projects/7783

.. |MNE| image:: https://mne.tools/dev/_static/mne_logo_gray.svg
   :target: https://mne.tools/dev/

Owner

  • Name: MNE tools for MEG and EEG data analysis
  • Login: mne-tools
  • Kind: organization

JOSS Publication

Intracranial Electrode Location and Analysis in MNE-Python
Published
February 14, 2022
DOI
Volume 7, Issue 70, Page 3897
Authors
Alexander P. Rockhill ORCID
Department of Human Physiology, University of Oregon, Eugene OR, USA
Eric Larson ORCID
Institute for Learning and Brain Sciences, University of Washington, Seattle, WA, USA
Brittany Stedelin ORCID
Department of Neurological Surgery, Oregon Health & Science University, Portland, Oregon
Alessandra Mantovani
Department of Neurological Surgery, Oregon Health & Science University, Portland, Oregon
Ahmed M. Raslan ORCID
Department of Neurological Surgery, Oregon Health & Science University, Portland, Oregon
Alexandre Gramfort ORCID
Université Paris-Saclay, Inria, CEA, Palaiseau, France
Nicole C. Swann ORCID
Department of Human Physiology, University of Oregon, Eugene OR, USA
Editor
Prashant Jha ORCID
Tags
BIDS MNE neuroimaging iEEG sEEG ECoG
View PDF Review Thread Software Archive

Citation (CITATION.cff) 

cff-version: 1.2.0
title: "MNE-Python"
message: "If you use this software, please cite both the software itself, and the paper listed in the preferred-citation field."
version: 1.10.0
date-released: "2025-07-14"
commit: 0c0e72efe1f062cce5fb2aaa9509cf77036ae6f9
doi: 10.5281/zenodo.592483
keywords:
  - MEG
  - magnetoencephalography
  - EEG
  - electroencephalography
  - fNIRS
  - "functional near-infrared spectroscopy"
  - iEEG
  - "intracranial EEG"
  - eCoG
  - electrocorticography
  - DBS
  - "deep brain stimulation"
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preferred-citation:
  title: "MEG and EEG Data Analysis with MNE-Python"
  journal: "Frontiers in Neuroscience"
  type: article
  year: 2013
  volume: 7
  issue: 267
  start: 1
  end: 13
  doi: 10.3389/fnins.2013.00267
  authors:
    - family-names: Gramfort
      given-names: Alexandre
    - family-names: Luessi
      given-names: Martin
    - family-names: Larson
      given-names: Eric
    - family-names: Engemann
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    - family-names: Brodbeck
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    - family-names: Goj
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    - family-names: Jas
      given-names: Mainak
    - family-names: Brooks
      given-names: Teon
    - family-names: Parkkonen
      given-names: Lauri
    - family-names: Hämäläinen
      given-names: Matti S.

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Papers & Mentions

Total mentions: 4

Neural speech restoration at the cocktail party: Auditory cortex recovers masked speech of both attended and ignored speakers
Last synced: 2 months ago
An Analytical Framework of Tonal and Rhythmic Hierarchy in Natural Music Using the Multivariate Temporal Response Function
Last synced: 2 months ago
Recurrent processes support a cascade of hierarchical decisions
Last synced: 2 months ago
Disentangling Semantic Composition and Semantic Association in the Left Temporal Lobe
Last synced: 2 months ago

GitHub Events

Total
  • Create event: 63
  • Release event: 1
  • Issues event: 231
  • Watch event: 319
  • Delete event: 62
  • Issue comment event: 1,328
  • Push event: 281
  • Gollum event: 13
  • Pull request review comment event: 652
  • Pull request event: 526
  • Pull request review event: 655
  • Fork event: 106
Last Year
  • Create event: 63
  • Release event: 1
  • Issues event: 231
  • Watch event: 321
  • Delete event: 62
  • Issue comment event: 1,331
  • Push event: 281
  • Gollum event: 13
  • Pull request review comment event: 658
  • Pull request event: 527
  • Pull request review event: 655
  • Fork event: 106

Committers

Last synced: 5 months ago

All Time
  • Total Commits: 16,622
  • Total Committers: 397
  • Avg Commits per committer: 41.869
  • Development Distribution Score (DDS): 0.743
Past Year
  • Commits: 331
  • Committers: 49
  • Avg Commits per committer: 6.755
  • Development Distribution Score (DDS): 0.728
Top Committers
Name Email Commits
Eric Larson l****d@g****m 4,265
Alexandre Gramfort a****t@i****r 1,664
Denis A. Engemann d****n@g****m 1,589
Jaakko Leppakangas j****p@g****m 923
Christian Brodbeck c****k@g****m 598
Mainak Jas m****s@g****m 569
Teon L Brooks t****s@g****m 526
Jona Sassenhagen j****n@g****m 524
Daniel McCloy d****n@m****o 453
Jean-Rémi King j****b@g****m 341
Martin Luessi m****i@n****u 327
Richard Höchenberger r****r@g****m 323
Clemens Brunner c****r@g****m 275
Roman Goj r****j@g****m 272
Guillaume Favelier g****r@g****m 271
Marijn van Vliet w****t@g****m 210
Mark Wronkiewicz w****k@g****m 187
Stefan Appelhoff s****f@m****g 150
Alex Rockhill a****6@g****m 150
Chris Holdgraf c****f@g****m 142
Mathieu Scheltienne m****e@g****m 139
Joan Massich m****k@g****m 135
Yousra Bekhti y****i@g****m 126
pre-commit-ci[bot] 6****] 89
Robert Luke c****e@r****t 88
Andrew Dykstra a****a@g****m 87
Alan Leggitt l****3@g****m 84
Lorenzo De Santis d****z@g****m 81
Romain Trachel r****l@i****r 81
Asish Panda a****5@g****m 78
and 367 more...
Committer Domains (Top 20 + Academic)
nmr.mgh.harvard.edu: 7 inria.fr: 4 uw.edu: 4 aalto.fi: 3 umd.edu: 2 dtu.dk: 2 nyu.edu: 2 ae.mpg.de: 2 mpi.nl: 2 fz-juelich.de: 2 me.com: 2 roujansky.eu: 1 ukr.net: 1 arcor.de: 1 live.fr: 1 mailbox.org: 1 cbs.mpg.de: 1 ucl.ac.uk: 1 cyceron.fr: 1 tu-ilmenau.de: 1 wustl.edu: 1 nih.gov: 1 mail.tau.ac.il: 1 mrc-cbu.cam.ac.uk: 1 rochester.edu: 1 swps.edu.pl: 1 neurostat.mit.edu: 1 andrew.cmu.edu: 1 blbt.uni-freiburg.de: 1 unimail.hud.ac.uk: 1 link.cuhk.edu.cn: 1 ieee.org: 1 ingenieria.uner.edu.ar: 1 mgh.harvard.edu: 1 cornell.edu: 1 idmt.fraunhofer.de: 1 iiitd.ac.in: 1 email.arizona.edu: 1 berkeley.edu: 1 uchicago.edu: 1 psych.ox.ac.uk: 1 uni-goettingen.de: 1 swarthmore.edu: 1 dartmouth.edu: 1 mpib-berlin.mpg.de: 1 m.fudan.edu.cn: 1 cs.washington.edu: 1 mail.bnu.edu.cn: 1

Issues and Pull Requests

Last synced: 4 months ago

All Time
  • Total issues: 753
  • Total pull requests: 1,693
  • Average time to close issues: 10 months
  • Average time to close pull requests: 26 days
  • Total issue authors: 272
  • Total pull request authors: 158
  • Average comments per issue: 4.97
  • Average comments per pull request: 3.08
  • Merged pull requests: 1,326
  • Bot issues: 1
  • Bot pull requests: 215
Past Year
  • Issues: 184
  • Pull requests: 662
  • Average time to close issues: 15 days
  • Average time to close pull requests: 5 days
  • Issue authors: 93
  • Pull request authors: 76
  • Average comments per issue: 1.71
  • Average comments per pull request: 1.93
  • Merged pull requests: 470
  • Bot issues: 1
  • Bot pull requests: 123
View more stats
Top Authors
Issue Authors
  • larsoner (103)
  • hoechenberger (74)
  • cbrnr (62)
  • drammock (50)
  • sappelhoff (31)
  • mscheltienne (17)
  • withmywoessner (14)
  • tsbinns (13)
  • scott-huberty (12)
  • alexrockhill (10)
  • wmvanvliet (9)
  • chapochn (7)
  • jasmainak (6)
  • britta-wstnr (6)
  • moritz-gerster (5)
Pull Request Authors
  • larsoner (440)
  • pre-commit-ci[bot] (151)
  • drammock (124)
  • mscheltienne (94)
  • sappelhoff (92)
  • hoechenberger (89)
  • cbrnr (87)
  • wmvanvliet (46)
  • scott-huberty (39)
  • github-actions[bot] (35)
  • tsbinns (33)
  • dependabot[bot] (29)
  • meeseeksmachine (25)
  • alexrockhill (22)
  • withmywoessner (21)
Top Labels
Issue Labels
BUG (210) ENH (161) DOC (92) EASY (21) VIZ (20) sprint-2023 (12) API (6) MAINT (5) MEDIUM (4) no-changelog-entry-needed (4) HARD (3) needs-discussion (3) a11y (3) packaging (3) tests (3) Inverse (1) Preprocessing (1) needs-upstream-fix (1) website (1) Decoding (1) github_actions (1) skip-changelog-checks (1) backport-candidate (1)
Pull Request Labels
no-changelog-entry-needed (493) skip-changelog-checks (80) backport-candidate (58) DOC (28) BUG (17) dependencies (17) backported (16) github_actions (13) ENH (12) MAINT (11) tests (6) VIZ (5) Still Needs Manual Backport (3) needs-discussion (3) GUI (2) EOSS4 (2) on-merge: backport to maint/1.7 (1) API (1) fNIRS (1)

Packages

  • Total packages: 5
  • Total downloads:
    • pypi 313,643 last-month
  • Total docker downloads: 1,584
  • Total dependent packages: 180
    (may contain duplicates)
  • Total dependent repositories: 702
    (may contain duplicates)
  • Total versions: 215
  • Total maintainers: 2
pypi.org: mne

MNE-Python project for MEG and EEG data analysis.

  • Versions: 82
  • Dependent Packages: 149
  • Dependent Repositories: 646
  • Downloads: 313,643 Last month
  • Docker Downloads: 1,584
Rankings
Dependent packages count: 0.1%
Dependent repos count: 0.5%
Average: 1.0%
Downloads: 1.1%
Forks count: 1.2%
Docker downloads count: 1.4%
Stargazers count: 1.5%
Maintainers (2)
Eric89GXL agramfort
Last synced: 4 months ago
proxy.golang.org: github.com/mne-tools/mne-python
  • Versions: 67
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent packages count: 5.4%
Average: 5.6%
Dependent repos count: 5.8%
Last synced: 4 months ago
conda-forge.org: mne

The main package for MNE-Python is named `mne` in conda-forge and should be suitable for most users. The conda recipe produces the following: - `mne`: should be installed for full functionality including 3D visualization. - `mne-base`: only pulls dependencies for basic functionality and 2D visualization.

  • Homepage: http://mne.tools
  • License: BSD-3-Clause
  • Latest release: 1.2.2
    published about 3 years ago
  • Versions: 45
  • Dependent Packages: 9
  • Dependent Repositories: 52
Rankings
Forks count: 4.4%
Dependent repos count: 4.9%
Average: 6.1%
Dependent packages count: 6.5%
Stargazers count: 8.6%
Last synced: 4 months ago
conda-forge.org: mne-base

The main package for MNE-Python is named `mne` in conda-forge and should be suitable for most users. The conda recipe produces the following: - `mne`: should be installed for full functionality including 3D visualization. - `mne-base`: only pulls dependencies for basic functionality and 2D visualization.

  • Homepage: http://mne.tools
  • License: BSD-3-Clause
  • Latest release: 1.2.2
    published about 3 years ago
  • Versions: 12
  • Dependent Packages: 22
  • Dependent Repositories: 4
Rankings
Dependent packages count: 3.0%
Forks count: 4.4%
Average: 8.0%
Stargazers count: 8.6%
Dependent repos count: 16.1%
Last synced: 4 months ago
conda-forge.org: mne-installer-menus

The main package for MNE-Python is named `mne` in conda-forge and should be suitable for most users. The conda recipe produces the following: - `mne`: should be installed for full functionality including 3D visualization. - `mne-base`: only pulls dependencies for basic functionality and 2D visualization. - `mne-installer-menus`: should not be installed manually, as it is only meant to be used by the standalone installers.

  • Homepage: http://mne.tools
  • License: BSD-3-Clause
  • Latest release: 1.2.2
    published about 3 years ago
  • Versions: 9
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Forks count: 4.1%
Stargazers count: 7.9%
Average: 24.3%
Dependent repos count: 34.0%
Dependent packages count: 51.2%
Last synced: 4 months ago

Dependencies

.github/workflows/circle_artifacts.yml actions
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pyproject.toml pypi
  • decorator *
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  • lazy_loader >=0.3
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.github/workflows/credit.yml actions
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environment.yml conda
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  • packaging
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  • pyvistaqt >=0.4
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  • vtk >=9.2
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